Proposed template

Application Details

• Description: Matlab is a numerical computing environment and programming language developed by MathWorks, MATLAB allows matrix manipulations, plotting of functions and data, and implementation of algorithms. A range of toolboxes (see list below) are available to extend functionality.
• Versions: 2016a, 2017a
• Module names: matlab/2016a, matlab/2017a
• License: University of Hull Total Academic Headcount license, available to everyone.

Interactive

Interactive with full graphical interface:

[username@login01 ~]$ interactive
salloc: Granted job allocation 289663
Job ID 289663 connecting to c170, please wait...
Last login: Thu Jan 26 12:59:11 2017 from 10.254.5.246
[username@c170 ~]$ module add matlab/2016a
[username@c170 ~]$ matlab

Interactive with command line only:

[username@c170 ~]$ matlab -nodisplay

                                                    < M A T L A B (R) >
                                          Copyright 1984-2016 The MathWorks, Inc.
                                           R2016a (9.0.0.341360) 64-bit (glnxa64)
                                                     February 11, 2016


To get started, type one of these: helpwin, helpdesk, or demo.
For product information, visit www.mathworks.com.


        Academic License

>>

Batch Submission

#!/bin/bash
#SBATCH -J MATLAB           # Job name, you can change it to whatever you want
#SBATCH -N 1                # Number of nodes (for Matlab should be always one)
#SBATCH -o %N.%j.out        # Standard output will be written here
#SBATCH -e %N.%j.err        # Standard error will be written here
#SBATCH -p compute          # Slurm partition, where you want the job to be queued 
#SBATCH -t 0-01:30          # Your expected run-time format in D-HH:MM 
#SBATCH --exclusive
 
module purge
module add matlab/2016a
 
matlab -nodisplay -nojvm -nodesktop -nosplash -r my_matlab_m_file

This submission script can be found at /path/to/sample/script Matlab

[username@login01 ~]$ sbatch MATLABtest.job
Submitted batch job 289522

Parallel Matlab

By default Matlab on Viper will run on a single core as mutli-threading conflicts with the schedulers resource management, however there are three ways in which Matlab can utilise multiple processors:

Multi-threading

Matlab can use multiple threads for certain built in functions for example linear algebra and numerical functions such as fft, \ (mldivide), eig, svd, and sort. These functions automatically execute on multiple computational threads in a single MATLAB session, allowing them to execute faster on multicore-enabled machines. Additionally, many functions in Image Processing Toolbox are multithreaded

Parallel Computing Toolbox

The Parallel Computing Toolbox allows you to open a number of workers (separate Matlab engines) on the local node, up to the number of cores on that node (28 for standard nodes in an exclusive session).

>> parpool('local',28)
Starting parallel pool (parpool) using the 'local' profile ... connected to 28 workers.

ans = 

 Pool with properties: 

            Connected: true
           NumWorkers: 28
              Cluster: local
        AttachedFiles: {}
          IdleTimeout: 30 minute(s) (30 minutes remaining)
          SpmdEnabled: true

Distributed Computing Toolbox

The distributed computing toolbox is not currently supported on Viper

Further Reading

• Forum support: https://www.hpc.hull.ac.uk/forum/viewforum.php?f=14
• Further information: https://www.mathworks.com/products/matlab.html
• Useful Matlab tutorials: http://www.mathworks.com/academia/student_center/tutorials.html
• Support
• Main Page

BACKUP

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WRITE WHAT YOU WANT HERE

For warnings WRITE WHAT YOU WANT HERE Please note that all contributions to HPC may be edited, altered, or removed by other contributors. If you do not want your writing to be edited mercilessly, then do not submit it here. You are also promising us that you wrote this yourself, or

Smart Ideas, tips and tricks WRITE WHAT YOU WANT HERE Please note that all contributions to HPC may be edited, altered, or removed by other contributors. If you do not want your writing to be edited mercilessly, then do not submit it here. You are also promising us that you wrote this yourself, or